AlignACE version 2.2 July 7, 1998 /home/amcguire/bin/alignACE -i00150_bsub_reg_300.orf -o00150_bsub_300.ace -a/home/amcguire/alignace/lib/ORF_bsub.txt -z/skink1/amcguire/genomes/bsub.fna -g0.44 -x5 -e Parameter values: expect = 5 ncols = 10 npass = 1000 maxnpass = 100 nruns = 1000 maxnruns = 100 repeat = 15 maxreps = 3 nread = 500 ncycles = 1 fragment = 1 psfact = 0.1 gcback = 0.44 maxlen = 30 weight = 0.8 exclude = 1 Input sequences: #1 metS 300 methionyl-tRNA synthetase #2 yabD 78 similar to hypothetical proteins #3 yabE 155 similar to hypothetical proteins #4 yabF 144 similar to hypothetical proteins #5 yerQ 300 similar to hypothetical proteins #6 yefA 255 alternate gene name: yerS; similar to RNA methyltransferase #7 yocC 170 yocC #8 yocD 63 similar to immunity to bacteriotoxins #9 yocE 161 similar to fatty-acid desaturase #10 gerCA 162 heptaprenyl diphosphate synthase component I #11 mtrB 21 tryptophan operon RNA-binding attenuation protein (TRAP) #12 mtrA 187 GTP cyclohydrolase I #13 hbs 300 non-specific DNA-binding protein HBsu #14 yqeT 24 similar to ribosomal protein L11 methyltransferase #15 dnaJ 199 heat-shock protein #16 dnaK 23 class I heat-shock protein (chaperonin) #17 grpE 71 heat-shock protein #18 hrcA 119 transcriptional regulator #19 hemN 52 coproporphyrinogen III oxidase #20 lepA 133 GTP-binding protein #21 spoIIP 62 spoIIP #22 gpr 203 spore protease Motif number 1 TACGCCCTGAAAAAGAATAATTAAAATTAAAAATCTTTA 1 129 0 AAAGATAAAA 0.725836 -172 TATCATAGATAAAGGATAAATATAAATAATATTCATATA 1 201 1 AAGGAAAAAA 0.936673 -100 GACGCTCGATATAAGAAAAAGTTTCATGAATATACAAAA 4 90 1 AAAGAAAACA 0.927133 -55 AGAATGTTAAGGATGACAAAAGCTCAAAACAAGAATCAG 5 143 1 GATGAAAACA 0.815981 -158 ACATAATCTTACAGGTGAAAACGCACAAAAGCTCAAAAC 5 181 0 AAGGTAAAAA 0.676883 -120 AGTTTTAAGCGAAAGAAAAACTTGGCCTATTCAAGCCAA 6 213 0 GAAGAAAAGA 0.860175 -43 CGTTTTTAAGAGAGGAAAAAGAAAACTAACCTGTGAAAA 7 24 0 AAGGAAAAAA 0.936673 -147 AAAAGTCTGGAAGAAAGAGCCAAGATATGCTGTAATG 8 9 1 GAAGAAGAAA 0.835679 -55 GCCGCACGAGACATGACAAATGTCATATAGGAGGCATGA 9 61 1 AATGAAAAAA 0.903906 -101 TAAGCGAATGAAAAGATAAAACTCATACATAGATTAAGA 10 100 1 AAAGAAAAAA 0.972209 -63 GGATGAAAAAAGGAAAAAAAGGAATATTC 13 1 1 GATGAAAAAA 0.924194 -300 ATGAGAGCAAGTAAGAGAAAGACAATTAAACGGCTTTTT 13 181 0 GAAGAAAAAA 0.978421 -120 GGGCAAGAAAAAAAGTCAAAGCCAAGAGATGCCTGACTT 15 92 0 AAAGTAAAAA 0.832064 -108 GTATCAAACCACAAGAAAAATGTCAATTATAACTCACCC 18 37 0 AAAGAAAAAA 0.972209 -83 GTACGTGAAAGAGAAAAGCAACCCAGATATGATAG 20 7 1 GAAGAAAAAA 0.978421 -127 TGTAAAACAAGAAAGAGAAAAGTTCCCTATCATATCTGG 20 33 0 GAAGAAAACA 0.942828 -101 CCTTTAGATTGCAATATAAATGTAAAGTATTTTTCATTG 22 101 1 GAATAAAAAA 0.679256 -103 AATCATGCTAAAAAGAGAACCTTCAATGAAAAATACTTT 22 124 0 AAAGAAACAA 0.796907 -80 * **** *** * * Masking position 3 Map Score: 16.497 Number of sites scoring better than the average of aligned sites = 567 Number in coding regions = 464 Number in noncoding regions = 103 Number of orfs with sites within 600 bp upstream = 112 Fraction of orfs with sites within 600 bp upstream = 0.0179891 Motif number 2 CCTTTGGGCGGGAGCTTTTTGACATTCTGA 1 266 1 GGAGCTTTTT 0.876452 -35 CGACAAGAAAGGAGTTTTTCACTT 2 65 1 GGAGTTTTTC 0.967944 -14 AAAACCCGCTAGCGTTTTTTG 3 2 0 AGCGTTTTTT 0.710123 -154 GGGTTTTGTAAGAGCTTGTCCCTTACAGCG 3 25 1 AGAGCTTGTC 0.93644 -131 TGTCCCTTACAGCGTTTTTCTATAAAAGTT 3 41 1 AGCGTTTTTC 0.936386 -115 AACGAATGCGAGGGTTTTTCAACAAGCTGA 5 20 0 AGGGTTTTTC 0.900472 -281 TCTTGTTTTGAGCTTTTGTCATCCTTAACA 5 147 0 AGCTTTTGTC 0.686702 -154 AACTGTTTTAGGATTTTGTCAACATTCTGA 6 33 0 GGATTTTGTC 0.818056 -223 TTTCGTTTTAGGATTTTGTCATCTTTTCAG 6 62 1 GGATTTTGTC 0.818056 -194 CCCTTAGAAAGGGGCTTTTCTGTGAAGAAA 12 55 0 GGGGCTTTTC 0.968102 -133 CCCTTTCTAAGGGGCTTTTCATATTTCAAG 12 72 1 GGGGCTTTTC 0.968102 -116 TCCTCAGAGTGCAGTTTTTCTTAAAAAGCC 13 159 1 GCAGTTTTTC 0.716893 -142 TGAAGTTTTTGGCGCTTTTTTTGGGTGAGT 18 15 1 GGCGCTTTTT 0.891513 -105 GATATGATAGGGAACTTTTCTCTTTCTTGT 20 36 1 GGAACTTTTC 0.753603 -98 GAATCCCTCCAGCGCTTGTCTAGTAATTAC 21 42 0 AGCGCTTGTC 0.94465 -21 ********** Masking position 6 Map Score: 15.6043 Number of sites scoring better than the average of aligned sites = 1013 Number in coding regions = 875 Number in noncoding regions = 138 Number of orfs with sites within 600 bp upstream = 126 Fraction of orfs with sites within 600 bp upstream = 0.0202377 Motif number 3 ATTATCCTACTAAAAATCCTTTTAAATCAAGA 1 20 1 TAAAACCTTT 0.953529 -281 AAACTTTGGTTCGAAAGTCTTGATTTAAAAGG 1 37 0 TGAAATCTTG 0.69981 -264 TCAAATGAAATAAAAAACTTTGGTTCGAAAGT 1 51 0 TAAAACTTTG 0.787435 -250 ATAATTAAAATTAAAAATCTTTAATGAAAATA 1 120 0 TAAAATCTTT 0.835599 -181 TTGTTACACGTGAAACACCTTTTGTTTATCA 2 10 0 TAAACCCTTT 0.957006 -69 TAACAATTCGTCGAACACCTTTTGTGTTTCGA 2 36 1 TGAACCCTTT 0.90395 -43 AAGTGAAAAACTCCTTTCTTGTCGAAA 2 62 0 AAAACCCTTT 0.670781 -17 CAAGACAAAATAAAAACTTTTGTATATTCATG 4 114 0 TAAAATTTTG 0.478508 -31 TCAGCTTGATTGAAAACCCTTGTAGTCTAGGA 5 110 0 TAAAACCTTG 0.957006 -191 GACAAAATCCTAAAACAGTTTTCGTTTTAGGA 6 43 1 TAAACGTTTT 0.654598 -213 TTCAGCGTGATTGAAAACCTTTGAAGTCTAGG 6 87 1 TGAAACCTTT 0.896647 -169 GATCAAACTCCTTTCAAAAAACAG 7 157 0 TAAACCCTTT 0.957006 -14 CCGATTGCGCTAAAAAAGCTTGTAAAAAAATT 9 21 0 TAAAAGCTTG 0.919275 -141 GATTGACGCTTTAAAATGCTTGATATGGCTTT 13 76 1 TAAAAGCTTG 0.919275 -225 AGAAAGACAATTAAACGGCTTTTTAAGAAAAA 13 173 0 TAAACGCTTT 0.919275 -128 * **** ***** Masking position 5 Map Score: 14.8012 Number of sites scoring better than the average of aligned sites = 513 Number in coding regions = 426 Number in noncoding regions = 87 Number of orfs with sites within 600 bp upstream = 90 Fraction of orfs with sites within 600 bp upstream = 0.0144555 Motif number 4 GGGTTTTTCAACAAGCTGAAAGCCTCAG 5 1 0 AAGCAACCAG 0.954171 -300 TGTAGAATTCGTGAGCACCGACGCGCAGACCTGACAAC 5 47 0 GAGCGACCAG 0.988853 -254 TCTAGGAAGGGGGAGCATTGGAGCGGAGCGAATGTAGA 5 79 0 GAGCGGCGAG 0.948181 -222 TCTAGGAAGGGCGAGCATCGGAGCACAGCGAATGTTGA 6 113 1 GAGCGGCCAG 0.992853 -143 TGTTGAATTCGTGAGCACCGAAGCACAGGCCTGACAAC 6 145 1 GAGCGACCAG 0.988853 -111 CCTTTCAAAAAACAGCTTAGAAACACAGTTACCAATTG 7 134 0 AAGCGACCAG 0.991765 -37 GTCTGGAAGAAAGAGCCAAGATATGCTGTAATGGTATA 8 15 1 AAGCGATCTG 0.916475 -49 ATTTGCTTTTAACAGCGGGGACAGCCAGC 10 2 0 AAGCGAGCAG 0.958599 -161 AATGCTCGCAAACAGCGGGAGGATACAGCCAATTCTTT 10 37 1 AAGCAGTCAG 0.88085 -126 TTCATATTTCAAGAGCATGGGCTTCCTGACAGGGCATT 12 89 1 AAGCGGTCTG 0.922407 -99 * *** ** * *** Masking position 4 Map Score: 9.97864 Number of sites scoring better than the average of aligned sites = 136 Number in coding regions = 113 Number in noncoding regions = 23 Number of orfs with sites within 600 bp upstream = 15 Fraction of orfs with sites within 600 bp upstream = 0.00240925 Motif number 5 GGGCGGGAGCTTTTTGACATTCTGATTAGG 1 271 1 TTTTTGACAT 0.512694 -30 AAGAAAGGAGTTTTTCACTT 2 69 1 TTTTTCACTT 0.478795 -10 TAAGAGCTTGTCCCTTACAGCGTTTTTCTA 3 33 1 TCCCTTACAG 0.7343 -123 CGATTCCTCCTTTTTCACAGGTTAGTTTTC 7 13 1 TTTTTCACAG 0.924921 -158 TACACTTTATTTCTTCACAGAAAAGCCCCT 12 46 1 TTCTTCACAG 0.97939 -142 GAGCATGGGCTTCCTGACAGGGCATTCACT 12 101 1 TTCCTGACAG 0.902812 -87 CATACAGAAATTCTTCACTTTGTTGGACAA 13 125 1 TTCTTCACTT 0.779911 -176 TGGACAAACATTCCTCAGAGTGCAGTTTTT 13 148 1 TTCCTCAGAG 0.80841 -153 TTATTATCATTTCTTCACAGTTCAGTCTGA 13 243 0 TTCTTCACAG 0.97939 -58 CTCTCCCGAATTTCTCACATAAATTAGATT 15 171 0 TTTCTCACAT 0.816601 -29 TGTGTTCACCTCCCTCAAAGTGTAAGGAGA 17 52 0 TCCCTCAAAG 0.567122 -20 CGGATTCACCTTCTTTACAGAAAGAAGCCG 19 33 0 TTCTTTACAG 0.868467 -20 AGGTTAAATCTTCTTCACAATAGAACAAAT 22 53 1 TTCTTCACAA 0.82328 -151 ACAGGGGCCTCCTTCACATTAAGTACCTA 22 185 0 TCCTTCACAT 0.896803 -19 ********** Masking position 7 Map Score: 9.9631 Number of sites scoring better than the average of aligned sites = 625 Number in coding regions = 540 Number in noncoding regions = 85 Number of orfs with sites within 600 bp upstream = 86 Fraction of orfs with sites within 600 bp upstream = 0.013813 Motif number 6 ATAGATAAAGGATAAATATAAATAATATTCATATA 1 205 1 GAAAAAAATA 0.837765 -96 CGAGAGCGGCGATAAGTGCAAATCATATATGAATA 1 230 0 GAAAGGAATA 0.727499 -71 GAAATACACTGAGAAACGGAAGAAAGACTTGTCGA 3 105 0 GAAAAGAAAA 0.954959 -51 AATCTTACAGGTGAAAACGCACAAAAGCTCAAAAC 5 181 0 GTAAACCAAA 0.605891 -120 TTTAAGAGAGGAAAAAGAAAACTAACCTGTGAAAA 7 24 0 GAAAAAAATA 0.837765 -147 AAGTCTGGAAGAAAGAGCCAAGATATGCTGTAATG 8 13 1 GAAGACAAAA 0.643156 -51 CACGAGACATGACAAATGTCATATAGGAGGCATGA 9 65 1 GAAAAGCAAA 0.933592 -97 CGAATGAAAAGATAAAACTCATACATAGATTAAGA 10 104 1 GAAAACCAAA 0.891217 -59 GGATGAAAAAAGGAAAAAAAGGAATATTC 13 5 1 GAAAAGAAAA 0.954959 -296 GAGCAAGTAAGAGAAAGACAATTAAACGGCTTTTT 13 181 0 GAAAAAAATA 0.837765 -120 AAGAAAAAAAGTCAAAGCCAAGAGATGCCTGACTT 15 92 0 GTAAACAAAA 0.698663 -108 TCTTGCCCGGGATAAAAGGAATTGAAAAATCATAA 15 123 1 GAAAAGAATA 0.948191 -77 CAAACCACAAGAAAAATGTCAATTATAACTCACCC 18 37 0 GAAAAGCATA 0.923869 -83 GTACGTGAAAGAGAAAAGCAACCCAGATATGATAG 20 11 1 GAAAAGAACA 0.849201 -123 ** *** * ** * * Masking position 11 Map Score: 8.42448 Number of sites scoring better than the average of aligned sites = 462 Number in coding regions = 397 Number in noncoding regions = 65 Number of orfs with sites within 600 bp upstream = 78 Fraction of orfs with sites within 600 bp upstream = 0.0125281 Motif number 7 CCCGCCCAAAGGACGAGAGCGGCGATAAGTGCA 1 245 0 GGACGGACGC 0.957942 -56 TATCCTATGAGGAGAAGAAAGCATGTAGAACTT 3 66 0 GGAGAGAAGA 0.929606 -90 GGGGAGCATTGGAGCGGAGCGAATGTAGAATTC 5 75 0 GGAGCGACGA 0.988189 -226 GGCGAGCATCGGAGCACAGCGAATGTTGAATTC 6 122 1 GGAGCCACGA 0.962243 -134 GCAAACAGCGGGAGGATACAGCCAATTCTTTTT 10 44 1 GGAGGTAAGC 0.924909 -119 ATTCATTGGTGGAGGACATAGAAC 12 174 1 GGAGGCAAGA 0.96876 -14 CCTTTTGGGAGGAGGTGAAAGGC 13 288 1 GGAGGGAAGC 0.991015 -13 CCCCGCTTCCGGAGCTGACCGAAAAGAACACAT 15 28 1 GGAGCGACGA 0.988177 -172 ACACTTTGAGGGAGGTGAACACA 17 59 1 GGAGGGACAA 0.940867 -13 TTGTATCTTAGGAGGTGAAACAC 22 1 0 GGAGGGAACC 0.941269 -203 ***** ** ** * Masking position 8 Map Score: 9.39947 Number of sites scoring better than the average of aligned sites = 212 Number in coding regions = 165 Number in noncoding regions = 47 Number of orfs with sites within 600 bp upstream = 37 Fraction of orfs with sites within 600 bp upstream = 0.00594282 Motif number 8 AAGACTTTCGAACCAAAGTTTTTTATTTCA 1 48 1 AACCAAAGTT 0.709298 -253 TTGGCTTACCAAGCCAAGTT 6 1 0 AAGCCAAGTT 0.984722 -255 TTGGCTTGGTAAGCCAAGCTCAGAATGTTG 6 14 1 AAGCCAAGCT 0.959297 -242 TGGCCTATTCAAGCCAAGTTTCAGCGTGTA 6 200 0 AAGCCAAGTT 0.984722 -56 TGGCTTGAATAGGCCAAGTTTTTCTTTCGC 6 214 1 AGGCCAAGTT 0.944812 -42 CTGGAAGAAAGAGCCAAGATATGCTGTAAT 8 17 1 GAGCCAAGAT 0.881624 -47 GCCCCGCTAAAAGCAAAGTGAATGCCCTGT 12 117 0 AAGCAAAGTG 0.893029 -71 AAAAAAGTCAAAGCCAAGAGATGCCTGACT 15 93 0 AAGCCAAGAG 0.940752 -107 ********** Masking position 6 Map Score: 6.98134 Number of sites scoring better than the average of aligned sites = 111 Number in coding regions = 99 Number in noncoding regions = 12 Number of orfs with sites within 600 bp upstream = 7 Fraction of orfs with sites within 600 bp upstream = 0.00112432 Motif number 9 GTTCGAAAGTCTTGATTTAAAAGGATTTTTAGTA 1 27 0 CTGATTAAGG 0.953107 -274 TGTATATATTCTTGATCTTAAAGGCTAAGATGGT 1 168 1 CTGATTAAGG 0.95312 -133 CCTTTTGTGTTTCGACAAGAAAGGAGTTTTTCAC 2 53 1 TTGACAAAGG 0.88225 -26 GACGCGCAGACCTGACAACGAATGCGAGGGTTTT 5 32 0 CCGACAAATG 0.925446 -269 CTCCCCCTTCCTAGACTACAAGGGTTTTCAATCA 5 102 1 CTGACAAGGG 0.946969 -199 CTCGCCCTTCCTAGACTTCAAAGGTTTTCAATCA 6 94 0 CTGACTAAGG 0.984136 -162 GAAGCACAGGCCTGACAACGAATGCGAAGGTTTG 6 164 1 CCGACAAATG 0.925446 -92 ACCTTAAATCCTTGACGAGCAAGGGATTGACGCT 13 52 1 CTGACAAAGG 0.987082 -249 GAAAAGCAACCCAGATATGATAGGGAACTTTTCT 20 23 1 CCGATTTAGG 0.725514 -111 ** *** * **** Masking position 5 Map Score: 3.90006 Number of sites scoring better than the average of aligned sites = 134 Number in coding regions = 108 Number in noncoding regions = 26 Number of orfs with sites within 600 bp upstream = 28 Fraction of orfs with sites within 600 bp upstream = 0.00449727 Motif number 10 ATTATTCTTTTTCAGGGCGTATGTATATATTC 1 147 1 TTCAGCGTAT 0.825934 -154 CTCAGTGTATTTCAGGATAATGAAGAGGACAC 3 127 1 TTCAGTAATG 0.602536 -29 TACTTATGTATTCAGAGGGTTTTGCGCCCTCT 4 15 1 TTCAGGGTTT 0.860483 -130 CTGAGGCTTTCAGCTTGTTGAAAAACCCTC 5 9 1 TTCAGTGTTG 0.977611 -292 TTAACATTCTTTCAGCTTGATTGAAAACCCTT 5 121 0 TTCAGTGATT 0.953469 -180 GTAAGCCAAGCTCAGAATGTTGACAAAATCCT 6 22 1 CTCAGTGTTG 0.864304 -234 TTGTCATCTTTTCAGCGTGATTGAAAACCTTT 6 77 1 TTCAGTGATT 0.953469 -179 CAAGCCAAGTTTCAGCGTGTAGGCAAACCTTC 6 189 0 TTCAGTGTAG 0.948061 -67 AGTGAAGAATTTCTGTATGTAGAGTAACACAT 13 112 0 TTCTGTGTAG 0.642414 -189 ACAGAAATTCTTCACTTTGTTGGACAAACATT 13 128 1 TTCACTGTTG 0.797544 -173 TTCTTCACAGTTCAGTCTGATTCTAAACCTGT 13 231 0 TTCAGTGATT 0.953469 -70 AAAGGATACATTCAGTTCGTTTATTATCATTT 13 261 0 TTCAGCGTTT 0.919031 -40 GACACTGTGCTACAGGTTGTATCTTAGGAGGT 22 18 0 TACAGTGTAT 0.596483 -186 AGGTTCTCTTTTTAGCATGATTTATTCAGCAA 22 141 1 TTTAGTGATT 0.555031 -63 ***** ***** Masking position 4 Map Score: 9.57672 Number of sites scoring better than the average of aligned sites = 612 Number in coding regions = 550 Number in noncoding regions = 62 Number of orfs with sites within 600 bp upstream = 45 Fraction of orfs with sites within 600 bp upstream = 0.00722775 Motif number 11 TCGACAAACCTATCCTATGAGGAGAAGAAAGC 3 77 0 TATCATGAGG 0.832242 -79 AACCTTTAATTATACTATGAGTTAAAAAAATC 5 232 0 TATCATGAGT 0.461719 -69 GGTATAAAACCATTGATGGAGGGTTCT 8 47 1 CATGTGGAGG 0.959163 -17 TAAATGTATTCATTGGTGGAGGACATAGAAC 12 167 1 CATGTGGAGG 0.959165 -21 AATGTATCCTTTTGGGAGGAGGTGAAAGGC 13 281 1 TTTGAGGAGG 0.941346 -20 TTATTGGATGAGGAGTTGGTAGT 14 2 1 TATGATGAGG 0.942165 -23 TTACATAGCAGGAGGTTATTCAA 16 4 1 CATGAGGAGG 0.986723 -20 TCTCCTTACACTTTGAGGGAGGTGAACACA 17 52 1 CTTGGGGAGG 0.845869 -20 TTTTGCGTTTAATAGTAGGAGTGATAGATT 20 114 1 AATGAGGAGT 0.711174 -20 CTACAGGTTGTATCTTAGGAGGTGAAACAC 22 9 0 TATTAGGAGG 0.865715 -195 *** * ****** Masking position 3 Map Score: 3.50355 Number of sites scoring better than the average of aligned sites = 273 Number in coding regions = 191 Number in noncoding regions = 82 Number of orfs with sites within 600 bp upstream = 91 Fraction of orfs with sites within 600 bp upstream = 0.0146161 Motif number 12 TTGAAAAACCCTCGCATTCGTTGTCAGGTCTG 5 28 1 CTCCATTCTT 0.967158 -273 TTTGTCATCCTTAACATTCTTTCAGCTTGATT 5 131 0 TTACATTCTT 0.92271 -170 TAGGCAAACCTTCGCATTCGTTGTCAGGCCTG 6 170 0 TTCCATTCTT 0.97766 -86 TGTCCCCAAATTCACATTTATTTCTTAATCTA 10 129 0 TTCCATTTTT 0.954933 -34 CTCTTACTTGCTCTCATTTTTTTCTGAGACAG 13 203 1 CTCCATTTTT 0.934462 -98 AGTTCGTTTATTATCATTTCTTCACAGTTCAG 13 248 0 TTACATTTTT 0.852514 -53 CGGATTCACCTTCTTTACAGAAAGAA 19 37 0 TTCCCTTCTT 0.930871 -16 *** ***** ** Masking position 7 Map Score: 2.37853 Number of sites scoring better than the average of aligned sites = 127 Number in coding regions = 91 Number in noncoding regions = 36 Number of orfs with sites within 600 bp upstream = 38 Fraction of orfs with sites within 600 bp upstream = 0.00610344 Motif number 13 GAATGTCAAAAAGCTCCCGCCCAAAGGACG 1 263 0 AAGCTCCCGC 0.775661 -38 CTCTTACAAAACCCGCTAGCGTTTTTTG 3 9 0 ACCCGCTAGC 0.91167 -147 AGAACCCTCCATCAATGGTTTTA 8 51 0 ACCCTCCATC 0.944722 -13 AATTGGCTGTATCCTCCCGCTGTTTGCGAG 10 41 0 ATCCTCCCGC 0.943204 -122 TTATAGCACCCTCTATCTTTA 11 5 0 ACCCTCTATC 0.896893 -17 TTGAATAACCTCCTGCTATGTAA 16 8 0 AACCTCCTGC 0.897163 -16 ACAGTTCTACTTCCTCTAGCTTGTTCATAG 21 11 1 TTCCTCTAGC 0.825081 -52 TGAATCCCTCCAGCGCTTGTCTAG 21 49 0 TCCCTCCAGC 0.964821 -14 CCTAAGATACAACCTGTAGCACAGTGTCTT 22 22 1 AACCTGTAGC 0.756557 -182 ********** Masking position 4 Map Score: 2.31946 Number of sites scoring better than the average of aligned sites = 436 Number in coding regions = 367 Number in noncoding regions = 69 Number of orfs with sites within 600 bp upstream = 50 Fraction of orfs with sites within 600 bp upstream = 0.00803084 Motif number 14 GAATTCGTGAGCACCGACGCGCAGACCTGA 5 51 0 GCACCGACGC 0.973016 -250 CATTCGCTCCGCTCCAATGCTCCCCCTTCC 5 83 1 GCTCCAATGC 0.956396 -218 AGGTGAAAACGCACAAAAGCTCAAAACTGA 5 178 0 GCACAAAAGC 0.914912 -123 CATTCGCTGTGCTCCGATGCTCGCCCTTCC 6 117 0 GCTCCGATGC 0.894359 -139 GAATTCGTGAGCACCGAAGCACAGGCCTGA 6 149 1 GCACCGAAGC 0.915544 -107 TTCGATTCTAGCACATATGCCCCGCTAAAA 12 135 0 GCACATATGC 0.886698 -53 ********** Masking position 7 Map Score: 4.26157 Number of sites scoring better than the average of aligned sites = 81 Number in coding regions = 70 Number in noncoding regions = 11 Number of orfs with sites within 600 bp upstream = 7 Fraction of orfs with sites within 600 bp upstream = 0.00112432 Motif number 15 GAACACCTTTTGTGTTTCGACAAGAAAGGA 2 48 1 TGTGTTTCGA 0.855203 -31 AATTGGTAACTGTGTTTCTAAGCTGTTTTT 7 135 1 TGTGTTTCTA 0.956965 -36 AGGCATGATGTGTGCTACTACAAAAGACTT 9 92 1 TGTGCTACTA 0.821739 -70 ATCCTCTCATTGTGTGTCTCGGTTCAGTAT 9 135 0 TGTGTGTCTC 0.903551 -27 GCTTTTTATATGTGTTACTCTACATACAGA 13 103 1 TGTGTTACTC 0.92812 -198 GCCGTTTAATTGTCTTTCTCTTACTTGCTC 13 186 1 TGTCTTTCTC 0.955906 -115 TGCCTGACTTTGACTTTCTAATCATTGAAT 15 72 0 TGACTTTCTA 0.710089 -128 GGGCAGCACCTGTCCTTCTCCTTACACTTT 17 36 1 TGTCCTTCTC 0.924677 -36 ********** Masking position 1 Map Score: 2.12554 Number of sites scoring better than the average of aligned sites = 133 Number in coding regions = 105 Number in noncoding regions = 28 Number of orfs with sites within 600 bp upstream = 31 Fraction of orfs with sites within 600 bp upstream = 0.00497912